{ "_id": "6a1ad5601d7bb097a09e4e92", "Package": "Cormotif", "Type": "Package", "Title": "Correlation Motif Fit", "Version": "1.59.0", "Date": "2011-06-08", "Author": "Hongkai Ji, Yingying Wei", "Maintainer": "Yingying Wei ", "Description": "It fits correlation motif model to multiple studies to\ndetect study specific differential expression patterns.", "License": "GPL-2", "LazyLoad": "yes", "biocViews": "Microarray, DifferentialExpression", "Config/pak/sysreqs": "zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:35:34 UTC", "RemoteUrl": "https://github.com/bioc/Cormotif", "RemoteRef": "HEAD", "RemoteSha": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-30 08:46:56 UTC", "User": "root" }, "MD5sum": "d58cce72d5b7513b0b94ba605c0afe6b", "_user": "bioc", "_type": "src", "_file": "Cormotif_1.59.0.tar.gz", "_fileid": "87bc84eb51f63ca52ffe2acd0af3ee57bb853e5342b4811b22b79e82faa6f36c", "_filesize": 416009, "_sha256": "87bc84eb51f63ca52ffe2acd0af3ee57bb853e5342b4811b22b79e82faa6f36c", "_created": "2026-05-30T08:46:56.000Z", "_published": "2026-05-30T12:17:36.898Z", "_jobs": [ { "job": 78637535504, "time": 142, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7306949365" }, { "job": 78637535512, "time": 143, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7306949484" }, { "job": 78637535509, "time": 172, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7306952282" }, { "job": 78637535546, "time": 116, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7308104482" }, { "job": 78637535508, "time": 92, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7308101858" }, { "job": 78637343772, "time": 206, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7306935072" }, { "job": 78637535505, "time": 93, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7306944391" }, { "job": 78637535521, "time": 101, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "7306945314" }, { "job": 78637535525, "time": 71, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "7306942370" }, { "job": 78637535522, "time": 88, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "7306944511" } ], "_bioccheck": { "error": 1, "warning": 2, "note": 14 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/Cormotif", "_commit": { "id": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379734 }, "_maintainer": { "name": "Yingying Wei", "email": "ywei@jhsph.edu" }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.12.0", "role": "Depends" }, { "package": "affy", "role": "Depends" }, { "package": "limma", "role": "Depends" }, { "package": "affy", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.59.0", "bioc": "3.24" }, { "branch": "release", "version": "1.58.0", "bioc": "3.23" } ], "_topics": [ "microarray", "differentialexpression" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 372, "source": "https://www.bioconductor.org/packages/stats/bioc/Cormotif" }, "_mentions": 5, "_searchresults": 60, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/Cormotif.html", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "cormotiffit", "cormotiffitall", "cormotiffitfull", "cormotiffitsep", "generank", "plotIC", "plotMotif" ], "_datasets": [ { "name": "simu2_compgroup", "title": "Example dataset for Cormotif", "object": "simu2_compgroup", "file": "simu2_compgroup.txt.gz", "class": [ "data.frame" ], "fields": [ "Cond1", "Cond2" ], "rows": 4, "table": true, "tojson": true }, { "name": "simu2_groupid", "title": "Example dataset for Cormotif", "object": "simu2_groupid", "file": "simu2_groupid.txt.gz", "class": [ "data.frame" ], "fields": [ "R1", "R2", "R3", "S1", "S2", "S3", "T1", "T2", "T3", "U1", "U2", "U3", "V1", "V2", "V3", "W1", "W2", "W3", "X1", "X2", "X3", "Y1", "Y2", "Y3" ], "rows": 1, "table": true, "tojson": true }, { "name": "simudata2", "title": "Example dataset for Cormotif", "object": "simudata2", "file": "simudata2.txt.gz", "class": [ "data.frame" ], "fields": [ "gene", "R1", "R2", "R3", "S1", "S2", "S3", "T1", "T2", "T3", "U1", "U2", "U3", "V1", "V2", "V3", "W1", "W2", "W3", "X1", "X2", "X3", "Y1", "Y2", "Y3" ], "rows": 3000, "table": true, "tojson": true } ], "_help": [ { "page": "cormotif-internal", "title": "Correlation Motif Internal functions", "topics": [ "cmfit", "cmfitall", "cmfitfull", "cmfitsep", "generatetype", "limmafit", "modt.f0.loglike", "modt.f1.loglike" ] }, { "page": "cormotiffit", "title": "Correlation Motif Fit", "topics": [ "cormotiffit" ] }, { "page": "cormotiffitall", "title": "All Studies Correlation Motif Fit", "topics": [ "cormotiffitall" ] }, { "page": "cormotiffitfull", "title": "Full Model Motif Fit", "topics": [ "cormotiffitfull" ] }, { "page": "cormotiffitsep", "title": "Individual Study Motif Fit", "topics": [ "cormotiffitsep" ] }, { "page": "generank", "title": "Rank genes based on statistics", "topics": [ "generank" ] }, { "page": "plotIC", "title": "BIC and AIC plot", "topics": [ "plotIC" ] }, { "page": "plotMotif", "title": "Correlation Motif plot", "topics": [ "plotMotif" ] }, { "page": "simudata2", "title": "Example dataset for Cormotif", "topics": [ "simu2_compgroup", "simu2_groupid", "simudata2" ] } ], "_rundeps": [ "affy", "affyio", "Biobase", "BiocGenerics", "BiocManager", "generics", "limma", "preprocessCore", "statmod" ], "_vignettes": [ { "source": "CormotifVignette.Rnw", "filename": "CormotifVignette.pdf", "title": "Cormotif Vignette", "engine": "utils::Sweave", "headings": [], "created": "2013-11-01 20:19:22", "modified": "2013-11-01 20:19:22", "commits": 1 } ], "_score": 4.778151250383644, "_indexed": true, "_nocasepkg": "cormotif", "_universes": [ "bioc" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.59.0", "date": "2026-05-30T08:49:13.000Z", "distro": "noble", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "83c97189d46a4b2092aa15881a3aacdb0ec0aae80a96b1ab35bf90e9559fff85", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" }, { "r": "4.6.0", "os": "linux", "version": "1.59.0", "date": "2026-05-30T08:49:44.000Z", "distro": "noble", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "77135210bc1530603849792d730449d1c52f4fb5d6669c2fcf6f720023caeb23", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" }, { "r": "4.5.3", "os": "mac", "version": "1.59.0", "date": "2026-05-30T12:16:51.000Z", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "fadc9c762a83f1a9a3f19119f2c0dc37c89401b0dab6497f99d9b6975c62f91d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" }, { "r": "4.6.0", "os": "mac", "version": "1.59.0", "date": "2026-05-30T12:16:28.000Z", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "c3c195dab06020bffd8d2b6ef3cd69afa362a6a2b17466ddd5f59526215710fc", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" }, { "r": "4.6.0", "os": "wasm", "version": "1.59.0", "date": "2026-05-30T08:48:48.000Z", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "245b9b619d43886082daa20ebe4e3d636f6c433e1afee96dad8270524f061cf8", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" }, { "r": "4.7.0", "os": "win", "version": "1.59.0", "date": "2026-05-30T08:48:26.000Z", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "269a0e467cd49051c62f2ff29409ec5b4c53673226147da2bf5afe92f13362df", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" }, { "r": "4.5.3", "os": "win", "version": "1.59.0", "date": "2026-05-30T08:47:59.000Z", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "f59cca1f1298d5bb7646fb73484068c34c868e845d8f8c51902a400557e1d090", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" }, { "r": "4.6.0", "os": "win", "version": "1.59.0", "date": "2026-05-30T08:48:09.000Z", "commit": "a29be76e0c6450b6fc6fad0c88d9599f8e21d47e", "fileid": "40d955ebb2b7c21eaaf1644d1e880fcf4cb884e8c958e0c3b53168978096208b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679533511" } ] }